# details: https://docs.python.org/2/install/index.html#alternate-installation-the-user-scheme
python setup.py install --user
# now update your PATH such that it includes the directory to which poretools was just copied.# look for a line in the installation log like: Installing poretools script to /home/arq5x/.local/bin# in this case, I would either add that path to the PATH environment variable for the current session:exportPATH=$PATH:/home/arq5x/.local/bin
# or, better yet add it to your .bashrc file.# at this point you should be able to run the poretools executable from anywhere on your system.
poretools --help

MinKNOW installs the Anaconda distribution of Python, which means that h5py, matplotlib, and pandas are already installed.

However, currently MinKNOW does not update the Windows registry to specify that Anaconda is the default version of Python, which makes installing packages tricky. To address this, some changes need to be made to the registry. This can be fixed by downloading the following file:

You will also need Cython and numpy packages (if they are not already installed):

pip install cython
pip install numpy

Now, you will need to install the R statistical analysis software (you may already have this...). The CRAN website houses automatic installation packages for different versions of OS X. Here are links to such packages for Snow Leopard and higher as well as Mavericks.